| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | ctccgggc | 8 | ||
| MIMAT0019084 | rlcv-miR-rL1-1-3p | 1 | ........ | 8 | 100 |
| MIMAT0035608 | dvi-miR-995-5p | 7 | _....... | 1 | 87 |
| MIMAT0031711 | bbe-miR-4904-5p | 8 | ......._ | 2 | 87 |
| MIMAT0028292 | mml-miR-7176-5p | 8 | ......._ | 2 | 87 |
| MIMAT0025341 | pde-miR949b | 2 | ......._ | 8 | 87 |
| MIMAT0020499 | bfl-miR-4904-5p | 8 | ......._ | 2 | 87 |
| MIMAT0019032 | hsa-miR-4497 | 1 | ......._ | 7 | 87 |
| MIMAT0012271 | dps-miR-995-5p | 7 | _....... | 1 | 87 |
| MIMAT0007957 | ptr-miR-1203 | 7 | ......._ | 1 | 87 |
| MIMAT0005866 | hsa-miR-1203 | 7 | ......._ | 1 | 87 |
| MIMAT0005009 | pta-miR949 | 2 | ......._ | 8 | 87 |
| MIMAT0037303 | cre-miR9897-5p | 3 | __...... | 8 | 75 |
| MIMAT0034817 | efu-miR-9223f | 2 | _......_ | 7 | 75 |
| MIMAT0034327 | cfa-miR-8834a | 3 | __...... | 8 | 75 |
| MIMAT0031417 | mmu-miR-8111 | 2 | __...... | 7 | 75 |
| MIMAT0030107 | bdi-miR5181c-5p | 2 | ......__ | 7 | 75 |
| MIMAT0028705 | mdo-miR-7346-3p | 2 | __...... | 7 | 75 |
| MIMAT0028407 | mmu-miR-7219-3p | 3 | _......_ | 8 | 75 |
| MIMAT0027972 | mmu-miR-7034-5p | 1 | _......_ | 6 | 75 |
| MIMAT0025828 | gga-miR-6557-5p | 6 | ......__ | 1 | 75 |
| MIMAT0025819 | gga-miR-6709-5p | 7 | __...... | 2 | 75 |
| MIMAT0024877 | osa-miR6254 | 3 | ......__ | 8 | 75 |
| MIMAT0024381 | ppy-miR-3940 | 8 | __...... | 3 | 75 |
| MIMAT0022379 | mmu-miR-5625-5p | 6 | _......_ | 1 | 75 |
| MIMAT0022126 | osa-miR5493 | 3 | __...... | 8 | 75 |
| MIMAT0019879 | hsa-miR-4745-3p | 8 | __...... | 3 | 75 |
| MIMAT0019574 | pma-miR-4544-3p | 1 | _......_ | 6 | 75 |
| MIMAT0018356 | hsa-miR-3940-3p | 8 | __...... | 3 | 75 |
| MIMAT0018867 | tca-miR-3884-3p | 7 | _......_ | 2 | 75 |
| MIMAT0018556 | ame-miR-3779 | 2 | __...... | 7 | 75 |
| MIMAT0018115 | hsa-miR-3687 | 6 | _......_ | 1 | 75 |
| MIMAT0016297 | sja-miR-3488 | 2 | ......__ | 7 | 75 |
| MIMAT0016235 | ppy-miR-1538 | 8 | __...... | 3 | 75 |
| MIMAT0015935 | ppy-miR-510 | 3 | ......__ | 8 | 75 |
| MIMAT0017775 | esi-miR3459-5p | 7 | ......__ | 2 | 75 |
| MIMAT0017749 | esi-miR3466-5p | 8 | ......__ | 3 | 75 |
| MIMAT0014707 | hsv2-miR-H24 | 1 | ......__ | 6 | 75 |
| MIMAT0014491 | tgu-miR-2981 | 1 | __...... | 6 | 75 |
| MIMAT0013840 | bta-miR-2882 | 7 | __...... | 2 | 75 |
| MIMAT0012332 | dps-miR-2522b-5p | 2 | _......_ | 7 | 75 |
| MIMAT0012065 | bta-miR-2474 | 3 | __...... | 8 | 75 |
| MIMAT0011837 | bta-miR-2316 | 2 | ......__ | 7 | 75 |
| MIMAT0011808 | bta-miR-2299-3p | 1 | _......_ | 6 | 75 |
| MIMAT0009829 | nve-miR-2051-3p | 8 | ......__ | 3 | 75 |
| MIMAT0009443 | mmu-miR-1946b | 2 | __...... | 7 | 75 |
| MIMAT0009412 | mmu-miR-1946a | 3 | __...... | 8 | 75 |
| MIMAT0007485 | gga-miR-1618-3p | 8 | __...... | 3 | 75 |
| MIMAT0007400 | hsa-miR-1538 | 8 | __...... | 3 | 75 |
| MIMAT0005783 | pbi-miR-510 | 3 | ......__ | 8 | 75 |
| MIMAT0005766 | mml-miR-510-5p | 3 | ......__ | 8 | 75 |
| MIMAT0005757 | ssy-miR-510 | 3 | ......__ | 8 | 75 |
| MIMAT0005395 | cre-miR1151b-5p | 1 | _......_ | 6 | 75 |
| MIMAT0005393 | cre-miR1151a-5p | 1 | _......_ | 6 | 75 |
| MIMAT0017313 | rno-miR-673-3p | 1 | _......_ | 6 | 75 |
| MIMAT0004824 | mmu-miR-673-3p | 1 | _......_ | 6 | 75 |
| MIMAT0026552 | hcmv-miR-UL112-5p | 2 | ......__ | 7 | 75 |
